Locus 3643

Sequence ID 2L_DroMel_CAF1
Location 10,605,577 – 10,605,677
Length 100
Max. P 0.560440
window5748

overview

Window 8

Location 10,605,577 – 10,605,677
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.56
Mean single sequence MFE -27.58
Consensus MFE -17.96
Energy contribution -18.32
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.33
Structure conservation index 0.65
SVM decision value 0.05
SVM RNA-class probability 0.560440
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10605577 100 - 22407834
-------------AAUCCCAACUUC--U---C--GCAACCUAAAUGCAACAUUAGUCAAGUCAAAGACUUUGAUUAGAUGAGAUGCGAACCAUCGAGUUUGGCUGCAUUUUGUCCCGGGG
-------------...(((......--.---.--(((.......))).....((((((((((...))).)))))))((..(((((((..(((.......))).)))))))..))..))). ( -26.60)
>DroPse_CAF1 86583 102 - 1
-------------UCUCCCUAUCCCUGUCGCU--GCCACUUGAAUGCAACAUUAGUCAAGUCAAAGACUUUGAUUAGAUGAGAGGCGAGCAAUCG---CUGGCUGCGUUUUGUCUUGGGG
-------------...(((((.......(((.--(((............(((((((((((((...))).)))))).))))...(((((....)))---))))).)))........))))) ( -31.96)
>DroSec_CAF1 85210 99 - 1
-------------AAUCCCAACUUC--U---C--GCAACCUAAAAGCAACAUUAGUCAAGUCAAAGACUUUGAUUAGAUGAGAUGCGAAGCAUUGAGUUUGGCUGCAUUUUGUACCG-GG
-------------...(((....((--(---(--((.........))....(((((((((((...))).))))))))..)))).((.((((.....)))).)).............)-)) ( -21.50)
>DroSim_CAF1 85766 100 - 1
-------------AAACCCAACUUC--U---C--GCAACCUAAAUGCAACAUUAGUCAAGUCAAAGACUUUGAUUAGAUGAGAUGCGAAGCAUUGAGUUUGACUGCAUUUUGUCCCGGGG
-------------...(((......--.---.--(((.......))).....((((((((((...))).)))))))((..(((((((((((.....))))...)))))))..))..))). ( -25.20)
>DroYak_CAF1 88374 98 - 1
-------------AAUCCCAACUCC--A---C--GAAUCCUAAAUGCAACAUUAGUCAAGUCAAAGACUUUGAUUAGAUGAGAUGCGAGCCAUC--GUUUGGCUGCAUUUUGUCCCGGGG
-------------...(((......--.---.--..................((((((((((...))).)))))))((..((((((.(((((..--...)))))))))))..))..))). ( -30.90)
>DroAna_CAF1 87599 112 - 1
UGACUGGCACUGGCACUCCUCCUCC--U---CGUGUAUUCUAAAUGCAACAUUAGUCAAGUCAAAGACUCUGAUUAGAUGAGAUGCGAGCAAUCG---CUGGCUGCAUUUUGUCUCGGGG
((((((((...((....))......--.---..(((((.....)))))......))).)))))....((((((...((..((((((.(((.....---...)))))))))..)))))))) ( -29.30)
>consensus
_____________AAUCCCAACUCC__U___C__GCAACCUAAAUGCAACAUUAGUCAAGUCAAAGACUUUGAUUAGAUGAGAUGCGAACCAUCG_GUUUGGCUGCAUUUUGUCCCGGGG
................(((.................................((((((((((...)))).))))))((..(((((((................)))))))..))..))). (-17.96 = -18.32 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:35 2006